Diversity and differentiation in Indonesian rice landrace
“Journal of Genetic Resources and Crop Evolution”
Kadapi Muhamad1, Kaworu Ebana2, Shuichi Fukuoka2 KazutoshiOkuno1
1Laboratoryof Plant Genetics and Breeding Science, Graduate School of Life and Environmental Sciences, University of Tsukuba, 1-1-1 Tennodai, Tsukuba, Ibaraki, Japan
2QTL Genomics Research Center, National Institute of Agrobiological Sciences, 2-1-2 Kannondai, Tsukuba, Ibaraki, 305-8602 Japan
*Corresponding author:
Supplementary Table 4.List of SSR markers used in this study.
Locus / Chr. / Repeat motif / PCR primer (5' to 3') / Annealing temp. (0C)RM431 / 1 / (AG)16 / f / TCCTGCGAACTGAAGAGTTG / 55
r / AGAGCAAAACCCTGGTTCAC
RM312 / 1 / (ATTT)4(GT)9 / f / GTATGCATATTTGATAAGAG / 55
r / AAGTCACCGAGTTTACCTTC
RM583 / 1 / (CTT)20 / f / AGATCCATCCCTGTGGAGAG / 55
r / GCGAACTCGCGTTGTAATC
RM259 / 1 / (CT)17 / f / TGGAGTTTGAGAGGAGGG / 55
r / CTTGTTGCATGGTGCCATGT
RM154 / 2 / (GA)21 / f / ACCCTCTCCGCCTCGCCTCCTC / 60
r / CTCCTCCTCCTGCGACCGCTCC
RM452 / 2 / (GTC)9 / f / CTGATCGAGAGCGTTAAGGG / 55
r / GGGATCAAACCACGTTTCTG
RM71 / 2 / (ATT)10T(ATT)4 / f / CTAGAGGCGAAAACGAGATG / 55
r / GGGTGGGCGAGGTAATAATG
RM240 / 2 / (CT)21 / f / CCTTAATGGGTAGTGTGCAC / 55
r / TGTAACCATTCCTTCCATCC
RM450 / 2 / (AG)17 / f / AAACCACAGTAGTACGCCGG / 55
r / TCCATCCACATCTCCCTCTC
RM489 / 3 / (ATA)8 / f / ACTTGAGACGATCGGACACC / 55
r / TCACCCATGGATGTTGTCAG
RM55 / 3 / (GA)17 / f / CCGTCGCCGTAGTAGAGAAG / 55
r / TCCCGGTTATTTTAAGGCG
RM251 / 3 / (CT)29 / f / GAATGGCAATGGCGCTAG / 55
r / ATGCGGTTCAAGATTCGATC
RM16 / 3 / (TCG)5(GA)16 / f / CGCTAGGGCAGCATCTAAA / 55
r / AACACAGCAGGTACGCGC
RM307 / 4 / (AT)14(GT)21 / f / GTACTACCGACCTACCGTTCAC / 55
r / CTGCTATGCATGAACTGCTC
RM124 / 4 / (TC)10 / f / ATCGTCTGCGTTGCGGCTGCTG / 67
r / CATGGATCACCGAGCTCCCCCC
RM334 / 5 / (CTT)20 / f / GTTCAGTGTTCAGTGCCACC / 55
r / GACTTTGATCTTTGGTGGACG
RM161 / 5 / (AG)20 / f / TGCAGATGAGAAGCGGCGCCTC / 61
r / TGTGTCATCAGACGGCGCTCCG
RM162 / 6 / (AC)20 / f / GCCAGCAAAACCAGGGATCCGG / 61
r / CAAGGTCTTGTGCGGCTTGCGG
RM454 / 6 / (GCT)8 / f / CTCAAGCTTAGCTGCTGCTG / 55
r / GTGATCAGTGCACCATAGCG
RM402 / 6 / (ATA)7 / f / GAGCCATGGAAAGATGCATG / 55
r / TCAGCTGGCCTATGACAATG
RM586 / 6 / (CT)23 / f / ACCTCGCGTTATTAGGTACCC / 55
r / GAGATACGCCAACGAGATACC
RM11 / 7 / (GA)17 / f / TCTCCTCTTCCCCCGATC / 55
r / ATAGCGGGCGAGGCTTAG
RM118 / 7 / (GA)8 / f / CCAATCGGAGCCACCGGAGAGC / 67
r / CACATCCTCCAGCGACGCCGAG
RM408 / 8 / (CT)13 / f / CAACGAGCTAACTTCCGTCC / 55
r / ACTGCTACTTGGGTAGCTGACC
RM284 / 8 / (GA)8 / f / ATCTCTGATACTCCATCCATCC / 55
r / CCTGTACGTTGATCCGAAGC
RM404 / 8 / (GA)33 / f / CCAATCATTAACCCCTGAGC / 55
r / GCCTTCATGCTTCAGAAGAC
Locus / Chr. / Repeat motif / PCR primer (5' to 3') / Annealing temp. (0C)
RM215 / 9 / (CT)16 / f / CAAAATGGAGCAGCAAGAGC / 55
r / TGAGCACCTCCTTCTCTGTAG
RM171 / 10 / (GATG)5 / f / AACGCGAGGACACGTACTTAC / 55
r / ACGAGATACGTACGCCTTTG
RM552 / 11 / (TAT)13 / f / CGCAGTTGTGGATTTCAGTG / 55
r / TGCTCAACGTTTGACTGTCC
RM536 / 11 / (CT)16 / f / TCTCTCCTCTTGTTTGGCTC / 55
r / ACACACCAACACGACCACAC
RM19 / 12 / (ATC)10 / f / CAAAAACAGAGCAGATGAC / 55
r / CTCAAGATGGACGCCAAGA
RM277 / 12 / (GA)11 / f / CGGTCAAATCATCACCTGAC / 55
r / CAAGGCTTGCAAGGGAAG
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